All File Changes

v404_preview2 to v404_base (2020-09-07 to 2020-09-14) v404

• confs/asia.hg.conf
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    8fc4e664cc02754e5c4f435a6fa03b74e3636668 Sun Sep 13 01:11:47 2020 -0700
    Installing updated hg.conf files from UCSC servers
• confs/euro.hg.conf
  • lines changed 1, context: html, text, full: html, text
    8fc4e664cc02754e5c4f435a6fa03b74e3636668 Sun Sep 13 01:11:47 2020 -0700
    Installing updated hg.conf files from UCSC servers
• confs/hgwbeta.hg.conf
  • lines changed 1, context: html, text, full: html, text
    8fc4e664cc02754e5c4f435a6fa03b74e3636668 Sun Sep 13 01:11:47 2020 -0700
    Installing updated hg.conf files from UCSC servers
• confs/rr.hg.conf
  • lines changed 3, context: html, text, full: html, text
    8fc4e664cc02754e5c4f435a6fa03b74e3636668 Sun Sep 13 01:11:47 2020 -0700
    Installing updated hg.conf files from UCSC servers
• src/hg/hgGene/hgGene.c
  • lines changed 4, context: html, text, full: html, text
    d2d2d0878f2026d7b3d9f3b2580ea6da3d8b76a3 Thu Sep 10 10:41:21 2020 -0700
    first cut at gencodeV35 html page
• src/hg/hgTrackUi/hgTrackUi.c
  • lines changed 5, context: html, text, full: html, text
    d156aaa50bbe78b0c05da8cde9cd837d88d659fc Wed Aug 19 12:03:49 2020 -0700
    hgc and hgTrackUi can query a 'relatedTrack' table to print a list of related tracks to the one being looked at along with a reason for the relation, refs #25721
• src/hg/hgTracks/hgTracks.c
  • lines changed 13, context: html, text, full: html, text
    7ab80a269e80bce062ebc1af540df9c13f9efeeb Fri Sep 11 15:56:56 2020 -0700
    Add GISAID's requested footer when displaying wuhCor1.
• src/hg/hgc/hgc.c
  • lines changed 77, context: html, text, full: html, text
    d156aaa50bbe78b0c05da8cde9cd837d88d659fc Wed Aug 19 12:03:49 2020 -0700
    hgc and hgTrackUi can query a 'relatedTrack' table to print a list of related tracks to the one being looked at along with a reason for the relation, refs #25721
• src/hg/htdocs/FAQ/FAQformat.html
  • lines changed 9, context: html, text, full: html, text
    fe2053eb5d1611d03b4c4f91e53aba4ac6e0178a Sat Sep 12 15:29:42 2020 -0700
    placeholders for bigLolly help
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    853914db4ca301e3d1db209c24b9a951dfbb5f4a Sun Sep 13 17:24:41 2020 -0700
    adding all the bigLolly options to doc
• src/hg/htdocs/covid19.html
  • lines changed 20, context: html, text, full: html, text
    de306bc0c8046b618da4950018406bdbe4b2ff21 Tue Sep 8 16:25:54 2020 -0700
    Update COVID-19 landing page News section and add GSAID terms and conditions. Ahead of UCSC SARS-CoV-2 manuscript release in Nature Genetics. refs #26195
  • lines changed 8, context: html, text, full: html, text
    598b456b9f994d9f13b10af35e81338d8afa9075 Wed Sep 9 12:03:11 2020 -0700
    Adding publication info refs #22678 #26195
• src/hg/htdocs/goldenPath/help/bigLolly.html
  • lines changed 214, context: html, text, full: html, text
    433c60e82625b83fbe7b40fff62a5f814d0488be Thu Sep 10 16:28:27 2020 -0700
    add placeholder for bigLolly.html so it gets copied by the install script
  • lines changed 123, context: html, text, full: html, text
    fe2053eb5d1611d03b4c4f91e53aba4ac6e0178a Sat Sep 12 15:29:42 2020 -0700
    placeholders for bigLolly help
  • lines changed 6, context: html, text, full: html, text
    853914db4ca301e3d1db209c24b9a951dfbb5f4a Sun Sep 13 17:24:41 2020 -0700
    adding all the bigLolly options to doc
• src/hg/htdocs/goldenPath/help/trackDb/trackDbDoc.html
  • lines changed 3, context: html, text, full: html, text
    fe93db7309370f4d9563eb068eeb4d69b663d8f0 Wed Sep 9 21:14:13 2020 -0700
    Document mouseOver setting. refs #26160
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    fe2053eb5d1611d03b4c4f91e53aba4ac6e0178a Sat Sep 12 15:29:42 2020 -0700
    placeholders for bigLolly help
  • lines changed 24, context: html, text, full: html, text
    853914db4ca301e3d1db209c24b9a951dfbb5f4a Sun Sep 13 17:24:41 2020 -0700
    adding all the bigLolly options to doc
• src/hg/htdocs/goldenPath/help/trackDb/trackDbHub.v2.html
  • lines changed 3, context: html, text, full: html, text
    fe93db7309370f4d9563eb068eeb4d69b663d8f0 Wed Sep 9 21:14:13 2020 -0700
    Document mouseOver setting. refs #26160
  • lines changed 17, context: html, text, full: html, text
    fe2053eb5d1611d03b4c4f91e53aba4ac6e0178a Sat Sep 12 15:29:42 2020 -0700
    placeholders for bigLolly help
  • lines changed 26, context: html, text, full: html, text
    853914db4ca301e3d1db209c24b9a951dfbb5f4a Sun Sep 13 17:24:41 2020 -0700
    adding all the bigLolly options to doc
• src/hg/htdocs/goldenPath/help/trackDb/trackDbLibrary.shtml
  • lines changed 14, context: html, text, full: html, text
    fe93db7309370f4d9563eb068eeb4d69b663d8f0 Wed Sep 9 21:14:13 2020 -0700
    Document mouseOver setting. refs #26160
  • lines changed 21, context: html, text, full: html, text
    fe2053eb5d1611d03b4c4f91e53aba4ac6e0178a Sat Sep 12 15:29:42 2020 -0700
    placeholders for bigLolly help
  • lines changed 32, context: html, text, full: html, text
    853914db4ca301e3d1db209c24b9a951dfbb5f4a Sun Sep 13 17:24:41 2020 -0700
    adding all the bigLolly options to doc
• src/hg/htdocs/goldenPath/newsarch.html
  • lines changed 20, context: html, text, full: html, text
    1fa0d91b193efa62568c3ab7f38db979e48eef90 Fri Sep 11 11:11:52 2020 -0700
    Announcing the UCSC LiftOver and NCBI Remap alignments for hg38 and hg19, refs #24449
• src/hg/htdocs/goldenPath/pubs.html
  • lines changed 6, context: html, text, full: html, text
    598b456b9f994d9f13b10af35e81338d8afa9075 Wed Sep 9 12:03:11 2020 -0700
    Adding publication info refs #22678 #26195
  • lines changed 2, context: html, text, full: html, text
    50accfb029273ddc4f81cee269234cef3310085a Wed Sep 9 12:10:57 2020 -0700
    correcting link #26195
• src/hg/htdocs/gtex.html
  • lines changed 10, context: html, text, full: html, text
    402d30fc47fa1b058c818a5d526ea02c2726b2f2 Wed Sep 9 11:24:18 2020 -0700
    Update ahead of GTEx V8 manuscripts published in Science special issue. refs #22678
  • lines changed 1, context: html, text, full: html, text
    598b456b9f994d9f13b10af35e81338d8afa9075 Wed Sep 9 12:03:11 2020 -0700
    Adding publication info refs #22678 #26195
• src/hg/htdocs/inc/globalNavBar.inc
  • lines changed 2, context: html, text, full: html, text
    d2c6627c662cc4e0ce77af0befbdb5366fd6594d Tue Sep 8 16:54:21 2020 -0700
    Update COVID page (and make more visible) ahead of Nature Genetics pub. refs #26195
• src/hg/htdocs/indexNews.html
  • lines changed 12, context: html, text, full: html, text
    1fa0d91b193efa62568c3ab7f38db979e48eef90 Fri Sep 11 11:11:52 2020 -0700
    Announcing the UCSC LiftOver and NCBI Remap alignments for hg38 and hg19, refs #24449
• src/hg/htdocs/staff.html
  • lines changed 3, context: html, text, full: html, text
    18cd2b8f8591c9a93ecb0deab04087e770908008 Tue Sep 8 15:04:09 2020 -0700
    Added Gerardo to staff page per training instructions
  • lines changed 1, context: html, text, full: html, text
    dd88477a54f640dddb08c1f54c9f737d8e1659b3 Wed Sep 9 11:57:53 2020 -0700
    Closing an open div anchor, no RM
• src/hg/inc/hui.h
  • lines changed 3, context: html, text, full: html, text
    d156aaa50bbe78b0c05da8cde9cd837d88d659fc Wed Aug 19 12:03:49 2020 -0700
    hgc and hgTrackUi can query a 'relatedTrack' table to print a list of related tracks to the one being looked at along with a reason for the relation, refs #25721
• src/hg/inc/versionInfo.h
  • lines changed 1, context: html, text, full: html, text
    6e371d4a360481e6f6515b9c761ee1c529ccde81 Mon Sep 14 10:02:00 2020 -0700
    New version number v404
• src/hg/lib/hdb.c
  • lines changed 24, context: html, text, full: html, text
    dc3e5f422dd65b728f62aed76c9d30e95dee3575 Tue Sep 8 08:47:17 2020 -0700
    hash up the chromAlias lookups to avoid numerous MySQL calls refs #24396
• src/hg/lib/hui.c
  • lines changed 49, context: html, text, full: html, text
    d156aaa50bbe78b0c05da8cde9cd837d88d659fc Wed Aug 19 12:03:49 2020 -0700
    hgc and hgTrackUi can query a 'relatedTrack' table to print a list of related tracks to the one being looked at along with a reason for the relation, refs #25721
  • lines changed 3, context: html, text, full: html, text
    8d8e30926803a0fcb3995fc628b2ac30491d144d Fri Sep 11 10:58:00 2020 -0700
    Put related tracks section under hg.conf control in addition to requiring a relatedTrack table, refs #25721
• src/hg/lib/relatedTrack.sql
  • lines changed 8, context: html, text, full: html, text
    d156aaa50bbe78b0c05da8cde9cd837d88d659fc Wed Aug 19 12:03:49 2020 -0700
    hgc and hgTrackUi can query a 'relatedTrack' table to print a list of related tracks to the one being looked at along with a reason for the relation, refs #25721
• src/hg/logCrawl/dbTrackAndSearchUsage/generateUsageStats.py
  • lines changed 1, context: html, text, full: html, text
    0172c2181f46af5672a018ae38958488a959338b Tue Sep 8 09:04:00 2020 -0700
    Missed adding a variable to function call during last script update, refs #26191
  • lines changed 4, context: html, text, full: html, text
    f8909a78b6359385af4d4287bab84026ed7e02ce Tue Sep 8 14:44:43 2020 -0700
    Adding information on where trimmed logs can be found refs #26191
• src/hg/makeDb/doc/covid/covidHgiGwas.txt
  • lines changed 127, context: html, text, full: html, text
    2f53c99dd16cc36dd899b2c237631b30d95d6bbb Wed Sep 9 20:44:58 2020 -0700
    Clean-up after track, add make doc. refs #26129
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    4d29f5bdc54732fe9518cf0357fb563074a1a238 Thu Sep 10 15:10:29 2020 -0700
    More make doc. refs #26129
• src/hg/makeDb/doc/hg19.txt
  • lines changed 7, context: html, text, full: html, text
    4d29f5bdc54732fe9518cf0357fb563074a1a238 Thu Sep 10 15:10:29 2020 -0700
    More make doc. refs #26129
• src/hg/makeDb/doc/hg38/covid.txt
  • lines changed 6, context: html, text, full: html, text
    4d29f5bdc54732fe9518cf0357fb563074a1a238 Thu Sep 10 15:10:29 2020 -0700
    More make doc. refs #26129
• src/hg/makeDb/doc/hg38/lastzRuns.txt
  • lines changed 18, context: html, text, full: html, text
    34371bd099e5103a5446e2390d70c67c45711d7b Wed Sep 2 11:00:28 2020 -0700
    Label tweaks. refs #26129
• src/hg/makeDb/doc/mm39/initialBuild.txt
  • lines changed 208, context: html, text, full: html, text
    48e9d70521d7c9a5ee6bb8057b222d4afcd0658f Thu Sep 10 18:19:37 2020 -0700
    browser complete QA Ready refs #22271
• src/hg/makeDb/doc/mm39/lastzRuns.txt
  • lines changed 84, context: html, text, full: html, text
    7cbb768e46b332eb317ef91c5ae37fdea5ba451d Fri Sep 11 09:47:54 2020 -0700
    done with canFam5 and calJac4 lastz chainNet refs #25917 #24074
• src/hg/makeDb/doc/neoSch1/initialBuild.txt
  • lines changed 16, context: html, text, full: html, text
    2bd3c930e4d93e242ee896ab83a585f6b83b8069 Fri Sep 11 14:28:03 2020 -0700
    update gold table search rule for new fakeAgp refs #19883
• src/hg/makeDb/genbank/etc/genbank.conf
  • lines changed 1, context: html, text, full: html, text
    e10d4d9fdcabb4b010e978b894c70473597e6884 Wed Sep 9 15:57:57 2020 -0700
    need to have perChromTables = no for mm39 refs #22271
• src/hg/makeDb/outside/covid/covidHgiGwas.as
  • lines changed 23, context: html, text, full: html, text
    2f53c99dd16cc36dd899b2c237631b30d95d6bbb Wed Sep 9 20:44:58 2020 -0700
    Clean-up after track, add make doc. refs #26129
• src/hg/makeDb/outside/covid/makeCovidHgiGwas.pl
  • lines changed 57, context: html, text, full: html, text
    2f53c99dd16cc36dd899b2c237631b30d95d6bbb Wed Sep 9 20:44:58 2020 -0700
    Clean-up after track, add make doc. refs #26129
• src/hg/makeDb/schema/all.joiner
  • lines changed 9, context: html, text, full: html, text
    1d776cf087b4b10409819b8119d39ad7fe8a894e Thu Sep 10 12:13:52 2020 -0700
    adding rules for calJac4 refs #24074
• src/hg/makeDb/trackDb/buildRelatedTracks
  • lines changed 25, context: html, text, full: html, text
    d156aaa50bbe78b0c05da8cde9cd837d88d659fc Wed Aug 19 12:03:49 2020 -0700
    hgc and hgTrackUi can query a 'relatedTrack' table to print a list of related tracks to the one being looked at along with a reason for the relation, refs #25721
  • lines changed 6, context: html, text, full: html, text
    81666892961b5efc9908c143299e70facb261ca0 Fri Sep 11 14:00:56 2020 -0700
    buildRelatedTracks should not fail when a database does not exist in the relatedTracks file, email from Hiram
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    c910dc3f3baff3bca6c6963b2f77c320be2e4fc7 Fri Sep 11 14:27:30 2020 -0700
    Ensure only database matches get loaded into relatedTrack table, refs Hiram
• src/hg/makeDb/trackDb/dog/canFam4/altAllele.ra
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    0a95f6c966100b11c33f3d51710ee702accd57a9 Tue Sep 8 15:41:57 2020 -0700
    adding tracks from Kerstin's lab refs #25279
• src/hg/makeDb/trackDb/dog/canFam4/filledGaps.ra
  • lines changed 8, context: html, text, full: html, text
    0a95f6c966100b11c33f3d51710ee702accd57a9 Tue Sep 8 15:41:57 2020 -0700
    adding tracks from Kerstin's lab refs #25279
• src/hg/makeDb/trackDb/dog/canFam4/miRNA.ra
  • lines changed 8, context: html, text, full: html, text
    0a95f6c966100b11c33f3d51710ee702accd57a9 Tue Sep 8 15:41:57 2020 -0700
    adding tracks from Kerstin's lab refs #25279
• src/hg/makeDb/trackDb/dog/canFam4/structVar.ra
  • lines changed 8, context: html, text, full: html, text
    0a95f6c966100b11c33f3d51710ee702accd57a9 Tue Sep 8 15:41:57 2020 -0700
    adding tracks from Kerstin's lab refs #25279
• src/hg/makeDb/trackDb/dog/canFam4/trackDb.ra
  • lines changed 5, context: html, text, full: html, text
    0a95f6c966100b11c33f3d51710ee702accd57a9 Tue Sep 8 15:41:57 2020 -0700
    adding tracks from Kerstin's lab refs #25279
• src/hg/makeDb/trackDb/dog/canFam4/uuGene.ra
  • lines changed 8, context: html, text, full: html, text
    0a95f6c966100b11c33f3d51710ee702accd57a9 Tue Sep 8 15:41:57 2020 -0700
    adding tracks from Kerstin's lab refs #25279
• src/hg/makeDb/trackDb/human/chainNetPrimate.ra
  • lines changed 19, context: html, text, full: html, text
    f7a1de048f1e4a82213dfbce22ceddd33b095c0e Fri Sep 11 13:31:09 2020 -0700
    adding definitions for calJac4 chainNet refs #24074
• src/hg/makeDb/trackDb/human/covidGwas.html
  • lines changed 26, context: html, text, full: html, text
    f1754b9bec9ec8ac6fa3de253b9e7be1e424e35c Wed Sep 2 10:33:52 2020 -0700
    Fine tuning track description, passing on to data provider (Juha KarjaLainen) for review. refs #26129
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    2a9d32c161c59ec9bd5d055843618ab15a703ce1 Mon Sep 7 20:02:37 2020 -0700
    Finishing touches to COVID GWAS track. refs #26129
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    2f53c99dd16cc36dd899b2c237631b30d95d6bbb Wed Sep 9 20:44:58 2020 -0700
    Clean-up after track, add make doc. refs #26129
• src/hg/makeDb/trackDb/human/covidGwas.ra
  • lines changed 4, context: html, text, full: html, text
    34371bd099e5103a5446e2390d70c67c45711d7b Wed Sep 2 11:00:28 2020 -0700
    Label tweaks. refs #26129
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    2f53c99dd16cc36dd899b2c237631b30d95d6bbb Wed Sep 9 20:44:58 2020 -0700
    Clean-up after track, add make doc. refs #26129
• src/hg/makeDb/trackDb/human/covidHgiGwas.html
  • lines changed 97, context: html, text, full: html, text
    2a9d32c161c59ec9bd5d055843618ab15a703ce1 Mon Sep 7 20:02:37 2020 -0700
    Finishing touches to COVID GWAS track. refs #26129
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    f5ab8547e2311529c933afb5a0363f21af928074 Fri Sep 11 03:15:43 2020 -0700
    improved desc page after feedback in refs #26187
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    6dcb8be23e6ca3c41fd73fa5d1fc16db3e3e644d Fri Sep 11 06:48:03 2020 -0700
    corrected smaller instead for greater in html refs #2619
• src/hg/makeDb/trackDb/human/covidHgiGwas.ra
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    f6293064b2a28634c8b8172d20b085f10295cfa4 Tue Sep 8 09:47:01 2020 -0700
    Final polish on COVID GWAS tracks. refs #26129
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    11ce1c9bfe6ee5307a1ba0a6ae118065e1aa2bb5 Wed Sep 9 20:07:53 2020 -0700
    Restore new mosueOver setting (was hidden as feature doesn't go out till next release. refs #26129
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    c57c5e37c1789478d7eb429a7e2c776dcaeabd5a Wed Sep 9 20:52:40 2020 -0700
    Final polish COVID GWAS track settings. refs #26129
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    7623b6f284ae6b946b771ea60a65d89afca0b863 Thu Sep 10 14:31:34 2020 -0700
    Customize item label. refs #26129
• src/hg/makeDb/trackDb/human/hg19/clinsub.ra
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    ee7252e0e940e7275740f975f08d750273ff5441 Sat Sep 12 12:41:09 2020 -0700
    add labels to clinsub (franklin-like) track
• src/hg/makeDb/trackDb/human/hg19/trackDb.ra
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    a13da9c935fdf89383a5383bbec6cdd0bb0b6f4d Thu Sep 10 16:45:00 2020 -0700
    Updating the shortLabel to use a capital 'H' so the order on hgTracks is correct. Removing release tags now that it is on the RR, refs #24449
• src/hg/makeDb/trackDb/human/hg38/gencodeV35.html
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    d2d2d0878f2026d7b3d9f3b2580ea6da3d8b76a3 Thu Sep 10 10:41:21 2020 -0700
    first cut at gencodeV35 html page
• src/hg/makeDb/trackDb/human/hg38/liftOver.ra
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    a13da9c935fdf89383a5383bbec6cdd0bb0b6f4d Thu Sep 10 16:45:00 2020 -0700
    Updating the shortLabel to use a capital 'H' so the order on hgTracks is correct. Removing release tags now that it is on the RR, refs #24449
• src/hg/makeDb/trackDb/human/trackDb.clinvar.ra
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    8e1de594b0f580652a3a7b4f1d1a3865356077fc Fri Sep 11 11:47:29 2020 -0700
    Removing test.ra for clinVar track improvements refs #24850
• src/hg/makeDb/trackDb/human/trackDb.clinvarTest.ra
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    8e1de594b0f580652a3a7b4f1d1a3865356077fc Fri Sep 11 11:47:29 2020 -0700
    Removing test.ra for clinVar track improvements refs #24850
• src/hg/makeDb/trackDb/human/trackDb.ra
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    2a9d32c161c59ec9bd5d055843618ab15a703ce1 Mon Sep 7 20:02:37 2020 -0700
    Finishing touches to COVID GWAS track. refs #26129
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    c57c5e37c1789478d7eb429a7e2c776dcaeabd5a Wed Sep 9 20:52:40 2020 -0700
    Final polish COVID GWAS track settings. refs #26129
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    f3a80fb5bbe7bc75a106babe702eab3aa2eae399 Thu Sep 10 15:02:42 2020 -0700
    Release of the test.ra for clinVar track improvements refs #24850
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    8e1de594b0f580652a3a7b4f1d1a3865356077fc Fri Sep 11 11:47:29 2020 -0700
    Removing test.ra for clinVar track improvements refs #24850
• src/hg/makeDb/trackDb/makefile
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    34371bd099e5103a5446e2390d70c67c45711d7b Wed Sep 2 11:00:28 2020 -0700
    Label tweaks. refs #26129
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    d156aaa50bbe78b0c05da8cde9cd837d88d659fc Wed Aug 19 12:03:49 2020 -0700
    hgc and hgTrackUi can query a 'relatedTrack' table to print a list of related tracks to the one being looked at along with a reason for the relation, refs #25721
• src/hg/makeDb/trackDb/marmoset/calJac4/description.html
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    34371bd099e5103a5446e2390d70c67c45711d7b Wed Sep 2 11:00:28 2020 -0700
    Label tweaks. refs #26129
• src/hg/makeDb/trackDb/marmoset/calJac4/gap.html
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    34371bd099e5103a5446e2390d70c67c45711d7b Wed Sep 2 11:00:28 2020 -0700
    Label tweaks. refs #26129
• src/hg/makeDb/trackDb/marmoset/calJac4/gold.html
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    34371bd099e5103a5446e2390d70c67c45711d7b Wed Sep 2 11:00:28 2020 -0700
    Label tweaks. refs #26129
• src/hg/makeDb/trackDb/marmoset/calJac4/trackDb.ra
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    34371bd099e5103a5446e2390d70c67c45711d7b Wed Sep 2 11:00:28 2020 -0700
    Label tweaks. refs #26129
• src/hg/makeDb/trackDb/mouse/mm10/trackDb.euarchontoglireChainNet.ra
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    f7a1de048f1e4a82213dfbce22ceddd33b095c0e Fri Sep 11 13:31:09 2020 -0700
    adding definitions for calJac4 chainNet refs #24074
• src/hg/makeDb/trackDb/relatedTracks.ra
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    d156aaa50bbe78b0c05da8cde9cd837d88d659fc Wed Aug 19 12:03:49 2020 -0700
    hgc and hgTrackUi can query a 'relatedTrack' table to print a list of related tracks to the one being looked at along with a reason for the relation, refs #25721
• src/hg/makeDb/trackDb/seal/neoSch1/trackDb.chainNet.ra
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    26ed95537ba33299dffef03bfcb8d409b8c3a660 Fri Sep 11 13:58:45 2020 -0700
    correct phylo ordering for chain net tracks refs #19883
• src/hg/makeDb/trackDb/seal/neoSch1/trackDb.ra
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    9caee6f4a351f661354560a656738ff209d8549c Thu Sep 10 14:06:41 2020 -0700
    Changed visibility for gap track to hidden, turned on transMapV5 by default and set priority to 3. Refs #19883
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    26ed95537ba33299dffef03bfcb8d409b8c3a660 Fri Sep 11 13:58:45 2020 -0700
    correct phylo ordering for chain net tracks refs #19883
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    f1e17cc4832f40da88da8888ca25da0aa1d10872 Fri Sep 11 14:18:03 2020 -0700
    new gold table requires new search term for fragment names refs #19883
• src/hg/makeDb/trackDb/tagTypes.tab
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    96f4b5b16f4ba4592b47e7ffb9ee3dd370477934 Fri Sep 11 08:57:16 2020 -0700
    Seems to work! Needed for COVID GWAS tracks. refs #26129
• src/hg/makeDb/trackDb/trackDb.chainNet.laurasiatheria.ra
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    66a1e6caeafc9cda89d0ecd3db52f1ca222958f9 Mon Sep 14 07:47:46 2020 -0700
    compatible release tags refs #19883
• src/hg/makeDb/trackDb/trackDb.chainNet.primates.ra
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    f7a1de048f1e4a82213dfbce22ceddd33b095c0e Fri Sep 11 13:31:09 2020 -0700
    adding definitions for calJac4 chainNet refs #24074
• src/hg/makeDb/trackDb/trackDb.chainNet.ra
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    f7a1de048f1e4a82213dfbce22ceddd33b095c0e Fri Sep 11 13:31:09 2020 -0700
    adding definitions for calJac4 chainNet refs #24074
• src/hg/makeDb/trackDb/trackDb.genbank.ra
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    5596fa9d98471bd8fcc5cc11f151cd5252a61b33 Mon Sep 14 07:51:02 2020 -0700
    Re-enable MGC Genes track, refs #25919 #16394
• src/hg/makeDb/trackDb/virus/wuhCor1/Starr_Bloom_antibody.html
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    9d254b6b0fea5fdf7ed50d9d93fbcca4815e5e5d Mon Sep 14 08:24:58 2020 -0700
    adding Bloom tracks, but can't get them to show up, refs #26201
• src/hg/makeDb/trackDb/virus/wuhCor1/Starr_Bloom_bind.html
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    9d254b6b0fea5fdf7ed50d9d93fbcca4815e5e5d Mon Sep 14 08:24:58 2020 -0700
    adding Bloom tracks, but can't get them to show up, refs #26201
• src/hg/makeDb/trackDb/virus/wuhCor1/bloom.ra
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    9d254b6b0fea5fdf7ed50d9d93fbcca4815e5e5d Mon Sep 14 08:24:58 2020 -0700
    adding Bloom tracks, but can't get them to show up, refs #26201
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    047acf8acbfddcc8756b7c03ca81aa5f0c73fbcf Mon Sep 14 08:54:00 2020 -0700
    fix problem with trailing tab
• src/hg/makeDb/trackDb/virus/wuhCor1/description.html
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    de306bc0c8046b618da4950018406bdbe4b2ff21 Tue Sep 8 16:25:54 2020 -0700
    Update COVID-19 landing page News section and add GSAID terms and conditions. Ahead of UCSC SARS-CoV-2 manuscript release in Nature Genetics. refs #26195
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    598b456b9f994d9f13b10af35e81338d8afa9075 Wed Sep 9 12:03:11 2020 -0700
    Adding publication info refs #22678 #26195
• src/hg/makeDb/trackDb/virus/wuhCor1/pond.html
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    0fee89081c1198da2ae51000502b911e81f4b0ff Thu Sep 10 16:13:20 2020 -0700
    Making changes in response to CR refs #26186
• src/hg/makeDb/trackDb/virus/wuhCor1/trackDb.ra
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    f7c6a391b035d1fe77979a8bc0a0b1268037196b Wed Sep 9 10:03:48 2020 -0700
    adding GISAID prefix to the microdeletions track, no redmine, requested by GISAID
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    6d56412507bbdfcaaa2f6635bc7070e9561e35ac Wed Sep 9 10:07:10 2020 -0700
    have to remove the GISAID prefix again, otherwise track name is too short
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    b62b48a036f835e133bb223ac5e58d338e176ae1 Wed Sep 9 11:50:18 2020 -0700
    Oops, David says not to rename SARS-CoV-2 Phylogeny.
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    accfaeacc95bf39fe265106314fbdab42f02167f Mon Sep 14 08:26:35 2020 -0700
    adding bloom tracks, refs #26201
• src/hg/utils/hubCheck/hubCheck.c
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    c11260d13e2c55808aa97525c9e5c2205aa768ec Thu Sep 10 11:33:29 2020 -0700
    Make hubCheck warn on missing description pages, refs #13428
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    d4266bc9322e38cdfb07859ab4db8e2671abb4e7 Thu Sep 10 12:44:07 2020 -0700
    Change missing track description page message to indicate it is just a warning, and make all track warnings print if there are no other errors present, refs #13428
• src/hg/utils/hubCheck/tests/expected/manyErrors.output.txt
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    c11260d13e2c55808aa97525c9e5c2205aa768ec Thu Sep 10 11:33:29 2020 -0700
    Make hubCheck warn on missing description pages, refs #13428
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    d4266bc9322e38cdfb07859ab4db8e2671abb4e7 Thu Sep 10 12:44:07 2020 -0700
    Change missing track description page message to indicate it is just a warning, and make all track warnings print if there are no other errors present, refs #13428
• src/inc/common.mk
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    4c0c9b11b17727025a36a497f8ca22e559211c3c Thu Sep 10 14:21:30 2020 -0700
    clean up inclusion of freetype library.
• src/inc/srcVersion.h
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    6e371d4a360481e6f6515b9c761ee1c529ccde81 Mon Sep 14 10:02:00 2020 -0700
    New version number v404
• src/lib/freeType.c
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    4c0c9b11b17727025a36a497f8ca22e559211c3c Thu Sep 10 14:21:30 2020 -0700
    clean up inclusion of freetype library.
• src/lib/freeType.h
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    4c0c9b11b17727025a36a497f8ca22e559211c3c Thu Sep 10 14:21:30 2020 -0700
    clean up inclusion of freetype library.
• src/lib/udc.c
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    7e6ba710dd2889aa522a4e6fd1f8a3ceb94e1055 Wed Sep 9 10:22:54 2020 -0700
    tweak udc cache code a little to use the correct path name to get the maximum file length
• src/utils/chromToUcsc/chromToUcsc
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    052f3c799ed1d1d2468ebedc6d2e70cb261b52df Wed Sep 9 01:59:39 2020 -0700
    allowing comments, fixing bug and removing dead code from chromToUcsc, refs #26053
• src/utils/qa/weeklybld/buildEnv.csh
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    b28f4a26960135e7aa715681d64fb0adff5049cd Mon Sep 14 10:00:52 2020 -0700
    v404 final build

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